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Results: 1 to 20 of 62

1.

Non-Circadian Expression Masking Clock-Driven Weak Transcription Rhythms in U2OS Cells.

Hoffmann J, Symul L, Shostak A, Fischer T, Naef F, Brunner M.

PLoS One. 2014 Jul 9;9(7):e102238. doi: 10.1371/journal.pone.0102238. eCollection 2014.

PMID:
25007071
[PubMed - as supplied by publisher]
Free Article
2.

Characteristic bimodal profiles of RNA polymerase II at thousands of active mammalian promoters.

Quinodoz M, Gobet C, Naef F, Gustafson KB.

Genome Biol. 2014 Jun 27;15(6):R85. [Epub ahead of print]

PMID:
24972996
[PubMed - as supplied by publisher]
3.

Circadian clock-dependent and -independent rhythmic proteomes implement distinct diurnal functions in mouse liver.

Mauvoisin D, Wang J, Jouffe C, Martin E, Atger F, Waridel P, Quadroni M, Gachon F, Naef F.

Proc Natl Acad Sci U S A. 2014 Jan 7;111(1):167-72. doi: 10.1073/pnas.1314066111. Epub 2013 Dec 16.

PMID:
24344304
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Stimulus-induced modulation of transcriptional bursting in a single mammalian gene.

Molina N, Suter DM, Cannavo R, Zoller B, Gotic I, Naef F.

Proc Natl Acad Sci U S A. 2013 Dec 17;110(51):20563-8. doi: 10.1073/pnas.1312310110. Epub 2013 Dec 2.

PMID:
24297917
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Analysis of precision in chemical oscillators: implications for circadian clocks.

d'Eysmond T, De Simone A, Naef F.

Phys Biol. 2013 Oct;10(5):056005. doi: 10.1088/1478-3975/10/5/056005. Epub 2013 Sep 16.

PMID:
24043227
[PubMed - indexed for MEDLINE]
6.

A chemostat array enables the spatio-temporal analysis of the yeast proteome.

Dénervaud N, Becker J, Delgado-Gonzalo R, Damay P, Rajkumar AS, Unser M, Shore D, Naef F, Maerkl SJ.

Proc Natl Acad Sci U S A. 2013 Sep 24;110(39):15842-7. doi: 10.1073/pnas.1308265110. Epub 2013 Sep 9.

PMID:
24019481
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Absolute quantification of transcription factors during cellular differentiation using multiplexed targeted proteomics.

Simicevic J, Schmid AW, Gilardoni PA, Zoller B, Raghav SK, Krier I, Gubelmann C, Lisacek F, Naef F, Moniatte M, Deplancke B.

Nat Methods. 2013 Jun;10(6):570-6. doi: 10.1038/nmeth.2441. Epub 2013 Apr 14.

PMID:
23584187
[PubMed - indexed for MEDLINE]
8.

The circadian clock coordinates ribosome biogenesis.

Jouffe C, Cretenet G, Symul L, Martin E, Atger F, Naef F, Gachon F.

PLoS Biol. 2013;11(1):e1001455. doi: 10.1371/journal.pbio.1001455. Epub 2013 Jan 3.

PMID:
23300384
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Genome-wide RNA polymerase II profiles and RNA accumulation reveal kinetics of transcription and associated epigenetic changes during diurnal cycles.

Le Martelot G, Canella D, Symul L, Migliavacca E, Gilardi F, Liechti R, Martin O, Harshman K, Delorenzi M, Desvergne B, Herr W, Deplancke B, Schibler U, Rougemont J, Guex N, Hernandez N, Naef F; CycliX Consortium.

PLoS Biol. 2012;10(11):e1001442. doi: 10.1371/journal.pbio.1001442. Epub 2012 Nov 27.

PMID:
23209382
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Circadian Dbp transcription relies on highly dynamic BMAL1-CLOCK interaction with E boxes and requires the proteasome.

Stratmann M, Suter DM, Molina N, Naef F, Schibler U.

Mol Cell. 2012 Oct 26;48(2):277-87. doi: 10.1016/j.molcel.2012.08.012. Epub 2012 Sep 13.

PMID:
22981862
[PubMed - indexed for MEDLINE]
Free Article
11.

Cold-inducible RNA-binding protein modulates circadian gene expression posttranscriptionally.

Morf J, Rey G, Schneider K, Stratmann M, Fujita J, Naef F, Schibler U.

Science. 2012 Oct 19;338(6105):379-83. doi: 10.1126/science.1217726. Epub 2012 Aug 23.

PMID:
22923437
[PubMed - indexed for MEDLINE]
Free Article
12.

Origins and consequences of transcriptional discontinuity.

Suter DM, Molina N, Naef F, Schibler U.

Curr Opin Cell Biol. 2011 Dec;23(6):657-62. doi: 10.1016/j.ceb.2011.09.004. Epub 2011 Sep 29. Review.

PMID:
21963300
[PubMed - indexed for MEDLINE]
13.

Computational analysis of protein-DNA interactions from ChIP-seq data.

Rougemont J, Naef F.

Methods Mol Biol. 2012;786:263-73. doi: 10.1007/978-1-61779-292-2_16.

PMID:
21938632
[PubMed - indexed for MEDLINE]
14.

Analysis of the dynamics of limb transcriptomes during mouse development.

Gyurján I, Sonderegger B, Naef F, Duboule D.

BMC Dev Biol. 2011 Jul 29;11:47. doi: 10.1186/1471-213X-11-47.

PMID:
21801425
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Whole-embryo modeling of early segmentation in Drosophila identifies robust and fragile expression domains.

Bieler J, Pozzorini C, Naef F.

Biophys J. 2011 Jul 20;101(2):287-96. doi: 10.1016/j.bpj.2011.05.060.

PMID:
21767480
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Mammalian genes are transcribed with widely different bursting kinetics.

Suter DM, Molina N, Gatfield D, Schneider K, Schibler U, Naef F.

Science. 2011 Apr 22;332(6028):472-4. doi: 10.1126/science.1198817. Epub 2011 Mar 17.

PMID:
21415320
[PubMed - indexed for MEDLINE]
Free Article
17.

Genome-wide and phase-specific DNA-binding rhythms of BMAL1 control circadian output functions in mouse liver.

Rey G, Cesbron F, Rougemont J, Reinke H, Brunner M, Naef F.

PLoS Biol. 2011 Feb;9(2):e1000595. doi: 10.1371/journal.pbio.1000595. Epub 2011 Feb 22.

PMID:
21364973
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

ASSET: a robust algorithm for the automated segmentation and standardization of early Caenorhabditis elegans embryos.

Blanchoud S, Budirahardja Y, Naef F, Gönczy P.

Dev Dyn. 2010 Dec;239(12):3285-96. doi: 10.1002/dvdy.22486.

PMID:
21089077
[PubMed - indexed for MEDLINE]
Free Article
19.

Information processing in cells and tissues (IPCAT'2009): from small scale dynamics to understanding systems behavior.

Egri-Nagy A, Galliot B, Naef F, Nehaniv CL.

Biosystems. 2010 Oct;102(1):1-2. doi: 10.1016/j.biosystems.2010.07.015. Epub 2010 Aug 17. No abstract available.

PMID:
20723577
[PubMed - indexed for MEDLINE]
20.

Stabilizing patterning in the Drosophila segment polarity network by selecting models in silico.

Stoll G, Bischofberger M, Rougemont J, Naef F.

Biosystems. 2010 Oct;102(1):3-10. doi: 10.1016/j.biosystems.2010.07.014. Epub 2010 Jul 22.

PMID:
20655356
[PubMed - indexed for MEDLINE]

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